Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

update readme.rmd with cran download badge #216

Merged
merged 2 commits into from
Apr 18, 2023
Merged

update readme.rmd with cran download badge #216

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
25a8190
update readme.rmd with cran download badge
LittleBeannie Apr 18, 2023
e052959
Render `README.Rmd`
nanxstats Apr 18, 2023
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
1 change: 1 addition & 0 deletions README.Rmd
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -31,6 +31,7 @@ knitr::opts_chunk$set(
[![R-CMD-check](https://github.com/Merck/gsDesign2/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/Merck/gsDesign2/actions/workflows/R-CMD-check.yaml)
[![Codecov test coverage](https://codecov.io/gh/Merck/gsDesign2/branch/main/graph/badge.svg)](https://app.codecov.io/gh/Merck/gsDesign2?branch=main)
[![CRAN status](https://www.r-pkg.org/badges/version/gsDesign2)](https://CRAN.R-project.org/package=gsDesign2)
[![CRAN Downloads](https://cranlogs.r-pkg.org/badges/gsDesign2)](https://cran.r-project.org/package=gsDesign2)
<!-- badges: end -->

## Objective
Expand Down
62 changes: 30 additions & 32 deletions README.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -10,6 +10,8 @@
coverage](https://codecov.io/gh/Merck/gsDesign2/branch/main/graph/badge.svg)](https://app.codecov.io/gh/Merck/gsDesign2?branch=main)
[![CRAN
status](https://www.r-pkg.org/badges/version/gsDesign2)](https://CRAN.R-project.org/package=gsDesign2)
[![CRAN
Downloads](https://cranlogs.r-pkg.org/badges/gsDesign2)](https://cran.r-project.org/package=gsDesign2)
<!-- badges: end -->

## Objective
Expand Down Expand Up @@ -82,11 +84,11 @@ fail_rate %>%
as_raw_html(inline_css = FALSE)
```

<div id="fhrqooclbo" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
<div id="iohtwzwbzu" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">

<table class="gt_table">
&#10; <thead class="gt_col_headings">
<tr>
<table class="gt_table" data-quarto-disable-processing="false" data-quarto-bootstrap="false">
<thead>
&#10; <tr class="gt_col_headings">
<th class="gt_col_heading gt_columns_bottom_border gt_left" rowspan="1" colspan="1" scope="col" id="stratum">stratum</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="duration">duration</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="fail_rate">fail_rate</th>
Expand Down Expand Up @@ -138,11 +140,11 @@ fd$enroll_rate %>%
as_raw_html(inline_css = FALSE)
```

<div id="fmviewnlnx" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
<div id="zlyydwofsx" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">

<table class="gt_table">
&#10; <thead class="gt_col_headings">
<tr>
<table class="gt_table" data-quarto-disable-processing="false" data-quarto-bootstrap="false">
<thead>
&#10; <tr class="gt_col_headings">
<th class="gt_col_heading gt_columns_bottom_border gt_left" rowspan="1" colspan="1" scope="col" id="stratum">stratum</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="duration">duration</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="rate">rate</th>
Expand Down Expand Up @@ -176,16 +178,14 @@ fd %>%
as_raw_html(inline_css = FALSE)
```

<div id="vutjnceoeo" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
<div id="sujaevgdsp" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">

<table class="gt_table">
<thead class="gt_header">
<tr>
<td colspan="8" class="gt_heading gt_title gt_font_normal gt_bottom_border" style>Fixed Design under AHR Method<sup class="gt_footnote_marks">1</sup></td>
<table class="gt_table" data-quarto-disable-processing="false" data-quarto-bootstrap="false">
<thead>
<tr class="gt_heading">
<td colspan="8" class="gt_heading gt_title gt_font_normal gt_bottom_border" style>Fixed Design under AHR Method<span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>1</sup></span></td>
</tr>
&#10; </thead>
<thead class="gt_col_headings">
<tr>
&#10; <tr class="gt_col_headings">
<th class="gt_col_heading gt_columns_bottom_border gt_left" rowspan="1" colspan="1" scope="col" id="Design">Design</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="N">N</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="Event">Event</th>
Expand All @@ -208,7 +208,7 @@ fd %>%
</tbody>
&#10; <tfoot class="gt_footnotes">
<tr>
<td class="gt_footnote" colspan="8"><sup class="gt_footnote_marks">1</sup> Power computed with average hazard ratio method.</td>
<td class="gt_footnote" colspan="8"><span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>1</sup></span> Power computed with average hazard ratio method.</td>
</tr>
</tfoot>
</table>
Expand Down Expand Up @@ -271,28 +271,26 @@ gsd %>%
as_raw_html(inline_css = FALSE)
```

<div id="ufjprzgkuv" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">
<div id="imumolcnny" style="padding-left:0px;padding-right:0px;padding-top:10px;padding-bottom:10px;overflow-x:auto;overflow-y:auto;width:auto;height:auto;">

<table class="gt_table">
<thead class="gt_header">
<tr>
<table class="gt_table" data-quarto-disable-processing="false" data-quarto-bootstrap="false">
<thead>
<tr class="gt_heading">
<td colspan="6" class="gt_heading gt_title gt_font_normal" style>Bound summary for AHR design</td>
</tr>
<tr>
<tr class="gt_heading">
<td colspan="6" class="gt_heading gt_subtitle gt_font_normal gt_bottom_border" style>AHR approximations of ~HR at bound</td>
</tr>
</thead>
<thead class="gt_col_headings">
<tr>
<tr class="gt_col_headings gt_spanner_row">
<th class="gt_col_heading gt_columns_bottom_border gt_left" rowspan="2" colspan="1" scope="col" id="Bound">Bound</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="2" colspan="1" scope="col" id="Z">Z</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="2" colspan="1" scope="col" id="Nominal p&lt;sup class=&quot;gt_footnote_marks&quot;&gt;1&lt;/sup&gt;">Nominal p<sup class="gt_footnote_marks">1</sup></th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="2" colspan="1" scope="col" id="~HR at bound&lt;sup class=&quot;gt_footnote_marks&quot;&gt;2&lt;/sup&gt;">~HR at bound<sup class="gt_footnote_marks">2</sup></th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="2" colspan="1" scope="col" id="Nominal p&lt;span class=&quot;gt_footnote_marks&quot; style=&quot;white-space:nowrap;font-style:italic;font-weight:normal;&quot;&gt;&lt;sup&gt;1&lt;/sup&gt;&lt;/span&gt;">Nominal p<span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>1</sup></span></th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="2" colspan="1" scope="col" id="~HR at bound&lt;span class=&quot;gt_footnote_marks&quot; style=&quot;white-space:nowrap;font-style:italic;font-weight:normal;&quot;&gt;&lt;sup&gt;2&lt;/sup&gt;&lt;/span&gt;">~HR at bound<span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>2</sup></span></th>
<th class="gt_center gt_columns_top_border gt_column_spanner_outer" rowspan="1" colspan="2" scope="colgroup" id="Cumulative boundary crossing probability">
<span class="gt_column_spanner">Cumulative boundary crossing probability</span>
</th>
</tr>
<tr>
<tr class="gt_col_headings">
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="Alternate hypothesis">Alternate hypothesis</th>
<th class="gt_col_heading gt_columns_bottom_border gt_right" rowspan="1" colspan="1" scope="col" id="Null hypothesis">Null hypothesis</th>
</tr>
Expand Down Expand Up @@ -333,18 +331,18 @@ gsd %>%
<td headers="Analysis: 4 Time: 36 Event: 309.5 AHR: 0.7 N: 418.66 Information fraction: 1 Nominal p" class="gt_row gt_right">0.0219</td>
<td headers="Analysis: 4 Time: 36 Event: 309.5 AHR: 0.7 N: 418.66 Information fraction: 1 ~HR at bound" class="gt_row gt_right">0.7951</td>
<td headers="Analysis: 4 Time: 36 Event: 309.5 AHR: 0.7 N: 418.66 Information fraction: 1 Alternate hypothesis" class="gt_row gt_right">0.8000</td>
<td headers="Analysis: 4 Time: 36 Event: 309.5 AHR: 0.7 N: 418.66 Information fraction: 1 Null hypothesis" class="gt_row gt_right"><sup class="gt_footnote_marks">3</sup> 0.0244</td></tr>
<td headers="Analysis: 4 Time: 36 Event: 309.5 AHR: 0.7 N: 418.66 Information fraction: 1 Null hypothesis" class="gt_row gt_right"><span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>3</sup></span> 0.0244</td></tr>
</tbody>
&#10; <tfoot class="gt_footnotes">
<tr>
<td class="gt_footnote" colspan="6"><sup class="gt_footnote_marks">1</sup> One-sided p-value for experimental vs control treatment.
<td class="gt_footnote" colspan="6"><span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>1</sup></span> One-sided p-value for experimental vs control treatment.
Value &lt; 0.5 favors experimental, &gt; 0.5 favors control.</td>
</tr>
<tr>
<td class="gt_footnote" colspan="6"><sup class="gt_footnote_marks">2</sup> Approximate hazard ratio to cross bound.</td>
<td class="gt_footnote" colspan="6"><span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>2</sup></span> Approximate hazard ratio to cross bound.</td>
</tr>
<tr>
<td class="gt_footnote" colspan="6"><sup class="gt_footnote_marks">3</sup> Cumulative alpha for final analysis (0.0244) is less than the full alpha (0.025) when
<td class="gt_footnote" colspan="6"><span class="gt_footnote_marks" style="white-space:nowrap;font-style:italic;font-weight:normal;"><sup>3</sup></span> Cumulative alpha for final analysis (0.0244) is less than the full alpha (0.025) when
the futility bound is non-binding. The smaller value subtracts the probability of
crossing a futility bound before crossing an efficacy bound at
a later analysis (0.025 - 6e-04 = 0.0244) under the null hypothesis.</td>
Expand Down